# HG changeset patch # User galaxyp # Date 1540466478 14400 # Node ID 45fb4dd8400b76d07ecd418c8b0b1885d5a02288 # Parent de334e98f1c1f3e0752ac036e037d923eb7de562 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/cardinal commit d2f311f7fff24e54c565127c40414de708e31b3c diff -r de334e98f1c1 -r 45fb4dd8400b macros.xml --- a/macros.xml Mon Oct 01 01:01:41 2018 -0400 +++ b/macros.xml Thu Oct 25 07:21:18 2018 -0400 @@ -4,10 +4,17 @@ bioconductor-cardinal + r-base + + /dev/null | grep -v -i "WARNING: ") + ]]> + + - + + @@ -198,12 +206,12 @@ - - + - - - + + + diff -r de334e98f1c1 -r 45fb4dd8400b spectra_plots.xml --- a/spectra_plots.xml Mon Oct 01 01:01:41 2018 -0400 +++ b/spectra_plots.xml Thu Oct 25 07:21:18 2018 -0400 @@ -1,4 +1,4 @@ - + mass spectrometry imaging mass spectra plots @@ -6,9 +6,9 @@ macros.xml - r-gridextra - r-ggplot2 - r-scales + r-ggplot2 + r-gridextra + r-scales 0){ @@ -88,7 +95,6 @@ ##################### IV) plot zoom-in mass spectrum ############### #if $chosenpixel.zoomedplot: - iData(msidata) <- iData(msidata)[] ## getting back data on disk #for $token in $chosenpixel.zoomedplot: @@ -253,6 +259,8 @@ print("Inputfile has no intensities > 0") dev.off() } + + ]]> diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Heatmaps_LM8_file16.pdf Binary file test-data/Heatmaps_LM8_file16.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Heatmaps_analyze75.pdf Binary file test-data/Heatmaps_analyze75.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Heatmaps_imzml.pdf Binary file test-data/Heatmaps_imzml.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Heatmaps_rdata.pdf Binary file test-data/Heatmaps_rdata.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Plot_analyze75.pdf Binary file test-data/Plot_analyze75.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Plot_analyze75_allpixels.pdf Binary file test-data/Plot_analyze75_allpixels.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Plot_empty_spectra.pdf Binary file test-data/Plot_empty_spectra.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Plot_imzml.pdf Binary file test-data/Plot_imzml.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Plot_rdata.pdf Binary file test-data/Plot_rdata.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/QC_analyze75.pdf Binary file test-data/QC_analyze75.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/QC_empty_spectra.pdf Binary file test-data/QC_empty_spectra.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/QC_imzml.pdf Binary file test-data/QC_imzml.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/QC_rdata.pdf Binary file test-data/QC_rdata.pdf has changed diff -r de334e98f1c1 -r 45fb4dd8400b test-data/analyze75.svg --- a/test-data/analyze75.svg Mon Oct 01 01:01:41 2018 -0400 +++ b/test-data/analyze75.svg Thu Oct 25 07:21:18 2018 -0400 @@ -1,15 +1,15 @@ - 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